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Estimated time of infection vs. confirmed infections

Following the ideas from Tomas Pueyo's Medium post "Coronavirus: Why You Must Act Now" [1], we assume the average time from infection to death at 23 days [2]. The data is pulled from the COVID-19 Data Repository by Johns Hopkins CSSE [3] every hour. Countries with a minimnum of 1000 confirmed cases and 40 confirmed deaths are included in this analysis.

The time from infection to death is equal to the incubation period plus the time from symptoms to death. This is used to estimate the time of the infections that lead to the observed deaths. We take the last fatality rate per country (total_cases/total_deaths) to estimate the number of infections that are responsible for the observed deaths.

In the figures below, you can observe successive waves of infections (dashed), detections (black) and deaths (red) for each country. The upper panel shows the absolute number of events. The dashed lines show the estimated number of infections. The lower panel shows the normalized number of events. Here the temporal delay between the waves and the relative change between each other can be observed.

[1] https://medium.com/@tomaspueyo/coronavirus-act-today-or-people-will-die-f4d3d9cd99ca

[2] https://github.com/midas-network/COVID-19/tree/master/parameter_estimates/2019_novel_coronavirus

[3] https://github.com/CSSEGISandData/COVID-19/tree/master/csse_covid_19_data/csse_covid_19_time_series

US
Brazil
Mexico
India
United Kingdom
Italy
France
Spain
Peru
Iran
Colombia
Russia
South Africa
Chile
Belgium
Germany
Canada
Argentina
Indonesia
Iraq
Ecuador
Pakistan
Netherlands
Turkey
Sweden
Egypt
China
Bolivia
Bangladesh
Saudi Arabia
Romania
Philippines
Guatemala
Ukraine
Switzerland
Poland
Panama
Portugal
Ireland
Honduras
Dominican Republic
Kyrgyzstan
Algeria
Kazakhstan
Afghanistan
Japan
Nigeria
Moldova
Morocco
Armenia
Israel
Sudan
Austria
Serbia
Ethiopia
El Salvador
Belarus
Oman
Denmark
North Macedonia
Bulgaria
Kenya
Bosnia and Herzegovina
Australia
Azerbaijan
Kuwait
Kosovo
Czechia
Cameroon
United Arab Emirates
Costa Rica
Venezuela
South Korea
Uzbekistan
Zambia
Senegal
Norway
Ghana
Paraguay
Libya
Qatar
Bahrain
Madagascar
Nepal
West Bank and Gaza
Lebanon
Cote d'Ivoire

Ahead of the curve

Some countries start testing the population earlier in the outbreak than others. The time delay between the wave of deaths and the wave of confirmed cases is indicative for how early a country is detecting new cases ahead of the increase of deaths. Earlier detection means a better chances for successful isolation of an infected person and treatment of the desease.

We measure the distance of the maximum of cumulative deaths and new deaths to the number of infections to estimate the progression of the infection across countries.

If, in the early phase of the infection wave, the number of deaths rises faster than the number of confirmed cases, the distance drops, indicating that

A comparison of countries with respect to their mean time for reponse is presented below.

To determine the above values, we plot the number of confirmed cases (solid black lines) and the number of deaths (dashed black lines). From this, we measure the distance of the day of maximum deaths (dashed red lines) to the day of confirmed cases at this y-value.

The distance is indicative for how fast the humber of confirmed cases increases comapred to the increase of the number of deaths.

US
Brazil
Mexico
India
United Kingdom
Italy
France
Spain
Peru
Iran
Colombia
Russia
South Africa
Chile
Belgium
Germany
Canada
Argentina
Indonesia
Iraq
Ecuador
Pakistan
Netherlands
Turkey
Sweden
Egypt
China
Bolivia
Bangladesh
Saudi Arabia
Romania
Philippines
Guatemala
Ukraine
Switzerland
Poland
Panama
Portugal
Ireland
Honduras
Dominican Republic
Kyrgyzstan
Algeria
Kazakhstan
Afghanistan
Japan
Nigeria
Moldova
Morocco
Armenia
Israel
Sudan
Austria
Serbia
Ethiopia
El Salvador
Belarus
Oman
Denmark
North Macedonia
Bulgaria
Kenya
Bosnia and Herzegovina
Australia
Azerbaijan
Kuwait
Kosovo
Czechia
Cameroon
United Arab Emirates
Costa Rica
Venezuela
South Korea
Uzbekistan
Zambia
Senegal
Norway
Ghana
Paraguay
Libya
Qatar
Bahrain
Madagascar
Nepal
West Bank and Gaza
Lebanon
Cote d'Ivoire